General information for g6549.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polypeptide N-acetylgalactosaminyltransferase 5.
Parent gene
- The parent gene g6549 is located on chr_2: 17612608..17613894 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g6549 | g6549.t10 | TTS | g6549.t10 | 17607799 | 17607799 |
| chr_2 | g6549 | g6549.t10 | isoform | g6549.t10 | 17608515 | 17613894 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon1 | 17608515 | 17608688 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon2 | 17608761 | 17608929 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon3 | 17609123 | 17609187 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon4 | 17609254 | 17609393 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon5 | 17610088 | 17610268 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon6 | 17610399 | 17610493 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS1 | 17610404 | 17610493 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon7 | 17610549 | 17610782 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS2 | 17610549 | 17610782 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon8 | 17610849 | 17610949 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS3 | 17610849 | 17610949 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon9 | 17611007 | 17611230 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS4 | 17611007 | 17611230 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon10 | 17611334 | 17611677 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS5 | 17611334 | 17611677 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon11 | 17612615 | 17612835 |
| chr_2 | g6549 | g6549.t10 | cds | g6549.t10.CDS6 | 17612615 | 17612671 |
| chr_2 | g6549 | g6549.t10 | exon | g6549.t10.exon12 | 17613757 | 17613894 |
| chr_2 | g6549 | g6549.t10 | TSS | g6549.t10 | 17613887 | 17613887 |
Sequences
>g6549.t10 Gene=g6549 Length=2086
AGAGTTCAGTTTTATTTTCGTACTAGAGAGAGAGAGAACAAAAATTTAGACAAAAGTAAA
AAGTGTCTGAAAATAAAGTTAAAACTCAGTTACTGATCGGAATTAAAAGAAATATGTGGT
GCAGTTAATAATTAAAAAAAGTTTGAATGAAAACACAAAAAATTTCGTACATCAATCTGC
ACCATCAACCAAACTCAATGTCTAATTATTCGAGAATGTTTCGTGGACGTATACGTACGA
GTACTTGTAGAATTATTCTAATAACTTCTTTAGCATGGCTTCTAATAGACGTGATCATAA
TTATGAAATACACTGATGGTCTCAATGGCGGATTATTTAAAAAATCTAGAGATAATGAGG
TTCATGAAGATAAATTTATCAGTCACCATCAACTTGACGAAGATCCAATTGTTAACGATG
ATGAAATAAATACAAATTTAAATAATGCTGATAATGATTTTAACAATGATGATGACGTGA
TACACATATCGAAAACATATCGATCGACAGATCTAAAGAAATGGCGGCCAGCGCCGGTGG
TGCGTGAAAATGTAGGAAAACCAGGTGAAATGGGCAAGCCGGTCAAAATGAAATCATATC
AGCAGGAAGAAATGAAAGAGAAATTCAAAGAAAATCAATTCAATTTGTTAGCAAGTGATA
TGATATGGTTGAATCGATCGCTCGCTGATGTGCGGCACAAAGACTGTCGAACTAAAACAT
ACCCAAGTAGATTGCCAACAACAAGTATAGTTATAGTTTTTCATAATGAAGCATGGAGCA
CATTGCTCAGAACAATATGGAGTGTAATTAATCGTTCACCACGACCGTTATTAAAAGAAA
TCATTCTCGTTGATGATGCAAGCGAGCGTGAATATTTAGGTGAAAAATTAGAGGAATATG
TAAAAACACTGCCTGTTCCAACATCAGTTTTACGCACCGGTAAAAGGTCTGGTCTCATTA
GAGCACGTTTATTGGGTGCTGCTGCTGTAAAAGGTCAAGTTATAACTTTTCTCGATGCTC
ATTGTGAATGTACTGAAGGTTGGTTAGAACCTTTGTTGTCGAGAATTGCTTTGGACAGAA
AAACAGTTGTTTGTCCAATAATCGATGTTATTAGTGATGAAACGTTTGAATATGTTACTG
CTTCTGATCAAACTTGGGGTGGTTTTAATTGGAAGCTCAATTTTAGATGGTATCGAGTAC
CTGCTAGAGAAATGGCAAGAAGAAATAATGATAGGACTTCACCTCTTCGAACGCCAACTA
TGGCGGGTGGTTTGTTTTCAATAGATAAAGATTATTTCTATGAAATTGGTTCATATGACG
AGGGAATGGATATTTGGGGTAAGTTTAAGTAACTTTTATTTGGCAATGCGGCGGAATTTT
GGAAATTGCTCCCTGTAGCCACGTTGGTCATGTTTTCAGAGATAAAAGTCCATATACTTT
CCCTGGCGGTGTGGCAAATATTGTACTTAAAAATGCTGCTCGTGTTGCAGCTGTTTGGCT
TGACGAATGGAAAGAATTTTACTTCGCTATGAGTCCAGGTGCACGAAAAACATCAGCTGG
AGATGTGTCTGCACGTCTTGCTCTAAGAGAAAAATTAAAGTGCAAGAGTTTCAGATGGTA
TCTTGAAAATATTTATCCTGAGAGTCAAATGCCATTAGATTATTATTTCCTCGGAGAAAT
TCGAAATGTCGAAAGTCAGAATTGTTTAGATACGATGGGTCATAAATCAGGAGAGAAAGT
TGGATCATCATATTGTCACGGACTGGGAGGTAATCAAGTTTTCGCCTACACTAAACGACA
ACAAATTATGTCAGATGATAACTGTCTTGATGCCAGTAACGCTCATGGACCAGTTAACTT
AGTTAGATGTCATGGAATGGGTGGGAATCAGGAATGGAGTTATGATGAGACTGACCTTAC
AATTAAGCATGTGAATTCAGGAAATTGTCTTACAAGAGCCACTCGAGAAGATCCTTCAAC
GCCACAACTTCGTCCATGTAACTTTTCTAAAGGTCAACAGTGGTTAATGCAATCAAAGTT
TAAGTGGCAAACAAAGCAAGGTACAGAAGATGAAGAGAGAAGATAG
>g6549.t10 Gene=g6549 Length=349
MKYTDGLNGGLFKKSRDNEVHEDKFISHHQLDEDPIVNDDEINTNLNNADNDFNNDDDVI
HISKTYRSTDLKKWRPAPVVRENVGKPGEMGKPVKMKSYQQEEMKEKFKENQFNLLASDM
IWLNRSLADVRHKDCRTKTYPSRLPTTSIVIVFHNEAWSTLLRTIWSVINRSPRPLLKEI
ILVDDASEREYLGEKLEEYVKTLPVPTSVLRTGKRSGLIRARLLGAAAVKGQVITFLDAH
CECTEGWLEPLLSRIALDRKTVVCPIIDVISDETFEYVTASDQTWGGFNWKLNFRWYRVP
AREMARRNNDRTSPLRTPTMAGGLFSIDKDYFYEIGSYDEGMDIWGKFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6549.t10 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 69 | 348 | 0 |
| 2 | g6549.t10 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 70 | 346 | 0 |
| 3 | g6549.t10 | PANTHER | PTHR11675:SF101 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 | 70 | 346 | 0 |
| 1 | g6549.t10 | Pfam | PF00535 | Glycosyl transferase family 2 | 148 | 332 | 0 |
| 4 | g6549.t10 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 124 | 345 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
